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#3334 answered A question about “restarting if the model blows up” um_support yb19052
Description

Hello CMS,

I have a question about a process for “restarting if the model blows up” in https://code.metoffice.gov.uk/trac/moci/wiki/tips_CRgeneral.

In steps 4 and 5, it worked for UM atmos restart, but not NEMO and CICE restart. I got the following error messages.

[about NEMO restart]

local_moci_lib/perturb_theta.py bv662o_18970101_restart_orig.nc --output ./bv662o_18970101_restart.nc
Perturbing Field - Sec 0, Item 388: ThetaVD After Timestep
Traceback (most recent call last):
  File "local_moci_lib/perturb_theta.py", line 183, in <module>
    main()
  File "local_moci_lib/perturb_theta.py", line 160, in main
    dfile = mule.DumpFile.from_file(dump_in)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/__init__.py", line 1254, in from_file
    new_umf._read_file(file_or_filepath)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/ff.py", line 502, in _read_file
    super(FieldsFile, self)._read_file(file_or_filepath)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/__init__.py", line 1441, in _read_file
    header = headerclass.from_file(source, length)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/__init__.py", line 392, in from_file
    values = np.fromfile(source, dtype=cls.DTYPE, count=num_words)
MemoryError

[about CICE restart]

local_moci_lib/perturb_theta.py bv662i.restart.1897-01-01-00000_orig.nc --output ./bv662i.restart.1897-01-01-00000.nc
Perturbing Field - Sec 0, Item 388: ThetaVD After Timestep
Traceback (most recent call last):
  File "local_moci_lib/perturb_theta.py", line 183, in <module>
    main()
  File "local_moci_lib/perturb_theta.py", line 160, in main
    dfile = mule.DumpFile.from_file(dump_in)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/__init__.py", line 1254, in from_file
    new_umf._read_file(file_or_filepath)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/ff.py", line 502, in _read_file
    super(FieldsFile, self)._read_file(file_or_filepath)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/__init__.py", line 1445, in _read_file
    header = headerclass.from_file(source, dim1, dim2)
  File "/projects/um1/mule/mule-2020.01.1/python-2.7.9_numpy-1.9.1/openmp/lib/mule/__init__.py", line 477, in from_file
    values = values.reshape((dim1, dim2), order="F")
ValueError: total size of new array must be unchanged

Can I use the approach with the NEMO and CICE restart dump? How do I fix the errors?

I appreciate your kind cooperation.

Thanks Kenji

#2939 answered Calendar type gregorian not recognised um_support yaweiqu
Description

Hi,

I am using UM11.2 UKESM to do some nudging simulations. I'm trying to convert a 360day suite (u-bj793) to Gregorian and active nudging (u-bj856). The suite u-bj856 crashed with error as follows:

[WARN] file:STASHC: skip missing optional source: namelist:exclude_package(:)
[WARN] file:ATMOSCNTL: skip missing optional source: namelist:jules_urban2t_param
[WARN] file:RECONA: skip missing optional source: namelist:trans(:)
[WARN] file:IDEALISE: skip missing optional source: namelist:idealised
[WARN] file:RECONA: skip missing optional source: namelist:ideal_free_tracer(:)
[WARN] file:IOSCNTL: skip missing optional source: namelist:lustre_control
[WARN] file:IOSCNTL: skip missing optional source: namelist:lustre_control_custom_files
[WARN] file:RECONA: skip missing optional source: namelist:recon_idealised
[WARN] file:SHARED: skip missing optional source: namelist:jules_urban_switches
[FAIL] setup_runtime: Calendar type gregorian not recognised
[FAIL] run_model # return-code=103
2019-06-19T05:06:49Z CRITICAL - failed/EXIT

The changes I've made including https://code.metoffice.gov.uk/trac/roses-u/changeset/120422 and https://code.metoffice.gov.uk/trac/roses-u/changeset/120366.

Could you please help me to solve this issue? Thank you in advance.

Best, Yawei

#2951 answered UKESM1-AMIP Nudging suite failed with NaNs in BICGstab um_support yaweiqu
Description

Hi,

I am running a nudged UKESM1-AMIP suite (u-bk347). The suite starts from 2014 and the total run length is 5 years. It runs fine in the first year, but failed at the beginning of 2015 with the following error:

???!!!???!!!???!!!???!!!???!!!       ERROR        ???!!!???!!!???!!!???!!!???!!!
?  Error code: 1
?  Error from routine: EG_BICGSTAB
?  Error message: NaNs in error term in BiCGstab after      1 iterations
?        This is a common point for the model to fail if it
?        has ingested or developed NaNs or infinities
?        elsewhere in the code.
?        See the following URL for more information:
?        https://code.metoffice.gov.uk/trac/um/wiki/KnownUMFailurePoints
?  Error from processor: 287
?  Error number: 88
????????????????????????????????????????????????????????????????????????????????

[287] exceptions: An non-exception application exit occured.
[287] exceptions: whilst in a serial region
[287] exceptions: Task had pid=31128 on host nid04824
[287] exceptions: Program is "/home/d03/yaweiqu/cylc-run/u-bk347/share/fcm_make_um/build-atmos/bin/um-atmos.exe"
Warning in umPrintMgr: umPrintExceptionHandler : Handler Invoked
[NID 04675] 2019-07-09 23:45:14 Apid 70099863: initiated application termination
[FAIL] um-atmos # return-code=137
2019-07-09T23:45:25Z CRITICAL - failed/EXIT

I found the time series emission files used in nudging (with Gregorian calendar) may not include the data after 2015. The VolcanicAod? data ends on 9-Jun-2014 and the CH4_biomass data ends on 1-Jan-2016.

easyaerosol_dir='/projects/ukca-admin/inputs/ancil/n96e/cmip6/VolcanicAod/tseries_1850-2014/365d'
easyaerosol_files='volc_aer_extinction_sw.nc','volc_aer_absorption_sw.nc',
                 ='volc_aer_asymmetry_sw.nc','volc_aer_extinction_lw.nc',
                 ='volc_aer_absorption_lw.nc','volc_aer_asymmetry_lw.nc',''

ukca_em_files='/projects/ukca-admin/inputs/ancil/n96e/cmip6/AeroChemEms/clim_2000/v1/aerocom/ukca_emiss_SO2_nat_grg.nc',
             ='/projects/ukca-admin/inputs/ancil/n96e/cmip6/AeroChemEms/tseries_1850-2014/CH4_biomass_low_1849_2015_time_series_grg.nc'

Could the BICGstab error be linked to the files above? If so, are there any other emission files can be used for 2015 onwards nudging simulation, or are there other causes of this error?

Thank you in advance.

Best, Yawei

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